Locus 91

Sequence ID	2L_DroMel_CAF1
Location	307,359 – 307,504
Length	145
Max. P	0.864977

overview

Window 5

Location	307,359 – 307,474
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	82.53
Mean single sequence MFE	-44.67
Consensus MFE	-25.91
Energy contribution	-30.48
Covariance contribution	4.56
Combinations/Pair	1.13
Mean z-score	-2.46
Structure conservation index	0.58
SVM decision value	0.72
SVM RNA-class probability	0.833493
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 307359 115 - 22407834
AGAAUGAGCAAGAGGGGGGGGGGGUUUCC----AGGGGUUUGGCCCCCACUGCUUUCCCGCUCUCUCCCUCAUCACAAUGACGCGUGGUUAUUGUAAUUAAAGUUAUGUGCGAUAUGUG-
.((.((((..((((((.(((..(((....----.((((.....))))....)))..))).))))))..))))))((((((((.....))))))))........................- ( -44.30)
>DroSec_CAF1 11653 112 - 1
AGAAAGAACGAGAGGGGGGGCG---UUUC----AGGGGUUGGGCCCCCACUGCCUUCCCUCUCUGUCGCUCAUCACGAUGACGCGUGGUUAUUGUAAUUAAAGUUAUGUGCGAUAUGUG-
.........(((((((((((((---....----.((((.....))))...)))))))))))))((((((.(((.((((((((.....))))))))(((....)))))).))))))....- ( -46.00)
>DroEre_CAF1 12241 108 - 1
-GCGAGAGCG------AGGCAGGGUGGUC----AGGGGUGGGGCC-CCACUGCUUUCCCUCUCUGUUCCUCAUCACGAUGACGCGUGGUUAUUGUAAUUAAAGUUAUGUGCGAUAUGUGC
-(((..((((------((((((((.((..----((.(((((....-))))).))..))..)))))..))))...((((((((.....)))))))).......)))...)))......... ( -38.30)
>DroYak_CAF1 12490 118 - 1
-GCGAGAACGGGAGGGAAGGAGGGUGGUUGGAAAGGGGUGGGGCCCCCACUGCUUUCCCUCUCUGUCCCUCAUCACGAUGACGCGUGGUUAUUGUAAUUAAAGUUAUGUGCGAUAUGUG-
-(((..(((((((((((.((((((.....((((((.((((((...)))))).)))))))))))).)))))).))((((((((.....)))))))).......)))...)))........- ( -50.10)
>consensus
_GAAAGAACGAGAGGGAGGGAGGGUGGUC____AGGGGUGGGGCCCCCACUGCUUUCCCUCUCUGUCCCUCAUCACGAUGACGCGUGGUUAUUGUAAUUAAAGUUAUGUGCGAUAUGUG_
.....(((.((.((((((((((((((((......((((.....)))).)))))))))))))))).)).)))(((((((((((.....)))))))).......((.....)))))...... (-25.91 = -30.48 +   4.56)

alignment

secondary structure

dotplot

Window 6

Location	307,398 – 307,504
Length	106
Sequences	4
Columns	114
Reading direction	reverse
Mean pairwise identity	75.78
Mean single sequence MFE	-46.80
Consensus MFE	-22.65
Energy contribution	-27.90
Covariance contribution	5.25
Combinations/Pair	1.13
Mean z-score	-2.43
Structure conservation index	0.48
SVM decision value	0.84
SVM RNA-class probability	0.864977
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 307398 106 - 22407834
GUAUGUUUU----CAGCUACGCGUGGCUGAAAAAAGAAUGAGCAAGAGGGGGGGGGGGUUUCC----AGGGGUUUGGCCCCCACUGCUUUCCCGCUCUCUCCCUCAUCACAAUG
.....((((----((((((....))))))))))..((.((((..((((((.(((..(((....----.((((.....))))....)))..))).))))))..))))))...... ( -49.20)
>DroSec_CAF1 11692 107 - 1
GGGUGUUUUCGGCCAGCUACGCGUGGCUGAAAAAAGAAAGAACGAGAGGGGGGGCG---UUUC----AGGGGUUGGGCCCCCACUGCCUUCCCUCUCUGUCGCUCAUCACGAUG
(((((((((((((((((...)).))))))))))..........(((((((((((((---....----.((((.....))))...)))))))))))))...)))))......... ( -51.00)
>DroEre_CAF1 12281 99 - 1
GGGU-U--UUGGCCAGCUACGCGUGCCUGAAAAU-GCGAGAGCG------AGGCAGGGUGGUC----AGGGGUGGGGCC-CCACUGCUUUCCCUCUCUGUUCCUCAUCACGAUG
.(((-.--...))).(((.(((((........))-)))..)))(------((((((((.((..----((.(((((....-))))).))..))..)))))..))))......... ( -37.80)
>DroYak_CAF1 12529 111 - 1
GGUUGU--UUGGCCUGCUACGCGUGGCUGAAAAA-GCGAGAACGGGAGGGAAGGAGGGUGGUUGGAAAGGGGUGGGGCCCCCACUGCUUUCCCUCUCUGUCCCUCAUCACGAUG
(.((.(--(..((((((...))).)))..)).))-.).....((.((((((.((((((.....((((((.((((((...)))))).)))))))))))).))))))....))... ( -49.20)
>consensus
GGGUGU__UUGGCCAGCUACGCGUGGCUGAAAAA_GAAAGAACGAGAGGGAGGGAGGGUGGUC____AGGGGUGGGGCCCCCACUGCUUUCCCUCUCUGUCCCUCAUCACGAUG
.............((((((....))))))..........(((.((.((((((((((((((((......((((.....)))).)))))))))))))))).)).)))......... (-22.65 = -27.90 +   5.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:25:29 2006